IMG Workshop

Date: Monday and Tuesday, March 22-23
Time: 9:00 AM – 5:00 PM (both days)
Location: Walnut Creek Marriott
Audience: Users and potential users of the Integrated Microbial Genomes (IMG)
and IMG with Microbiome Samples (IMG/M) data analysis systems.

2-day workshop with hands-on tutorials on IMG and IMG/M.

JGI 101

Date: Wednesday, March 24
Time: 9:00 AM – 12:00 PM
Location: Walnut Creek Marriott
Audience: Anyone who wants to learn the basics of collaborating with JGI.

This workshop offers an opportunity to learn the ins and outs of JGI sequencing operations and analysis. From writing successful proposals, and how we carry out sequencing projects, to working with sequence data and online tools, participants learn how to get the most out of the JGI. Discussions will include how the production sequencing facility handles samples, sequencing strategies and capacity, and how users can work with JGI to keep projects on track.

IMG 101

Date: Wednesday, March 24
Time: 9:00 AM – 12:00 PM
Location: Walnut Creek Marriott
Audience: Users and potential users of the Integrated Microbial Genomes (IMG)
and IMG with Microbiome Samples (IMG/M) data analysis systems.

The goals of the IMG 101 are to (1) provide an overview of the MG family systems, especially the latest functionality added and (2) to discuss ongoing developments of analytical tools of IMG in three areas: (a) methods of analysis of genes, genomes and functions/pathways; (b) data quality through internal and community-driven curation efforts; and (c) methods of analysis of metagenomic data.

Eukaryotic Annotation Workshop

Date: Wednesday, March 24
Time: 9:00 AM to 12:00 PM
Location: Walnut Creek Marriott
Audience: PIs and collaborators of eukaryotic projects with genomes annotated or expected for annotation
in 2010, as well as new members of user communities interested in Community Annotation.

The JGI Genome Portal provides tools for community annotation and analysis of eukaryotic genomes. Over 50 eukaryotic genomes were sequenced and annotated at JGI. The JGI Community Annotation offers tools and support for distributed community-driven genome analysis and manual curation of automatically annotated eukaryotes. The goal of this workshop is to train new members of the user community on how to use the basic functions of the JGI Genome Portal for genome analysis and manual curation of predicted genes and functions. Attendees will learn how to navigate through the genome, analyze gene families and pathways, seach for genes of interest, evaluate gene structures using available evidence and if necessary change them, and assign gene names and functions. This is a hands-on tutorial using laptop computers; please bring your own laptop.

Phytozome Workshop

Date: Wednesday, March 24
Time: 9:00 AM – 12:00 PM
Location: Walnut Creek Marriott
Audience: Users and potential users of the Phytozome plant genomics portal.

The Joint Genome Institute’s Phytozome web portal provides data access and visualization tools for comparative plant genomics. Phytozome integrates a number of widely used Open Source genomics platforms (GBrowse, BioMart, Jalview) with data systems, search, and visualization tools developed at JGI. This workshop will provide participants with an overview of the plant genomic data available at Phytozome, the various “entry points” to the Phytozome portal (e.g, sequence similarity search, functional and keyword search, genome browsing), data retrieval tools, and the types of analyses that are facilitated by Phytozome’s integrated environment.